Related papers: A General Systems Theory for the Observed Fractal …
We present a self-contained theory for the mechanical response of DNA in single molecule experiments. Our model is based on a 1D continuum description of the DNA molecule and accounts both for its elasticity and for DNA-DNA electrostatic…
The observational ubiquity of inverse power law spectra (IPL) in complex phenomena entails theory for dynamic fractal phenomena capturing their fractal dimension, dynamics, and statistics. These and other properties are consequences of the…
In the frequency power spectral density, periodic oscillations appear as a Dirac comb at integer multiples of the frequency of the period. In weakly nonlinear systems or systems close to the primary instability threshold, the periodicity…
In many stochastic dynamical systems, ordinary chaotic behavior is preceded by a full-dimensional phase that exhibits 1/f-type power-spectra and/or scale-free statistics of (anti)instantons such as neuroavalanches, earthquakes, etc. In…
Gene Regulatory Networks(GRNs) with feedback are essential components of many cellular processes and may exhibit oscillatory behavior. Analyzing such systems becomes increasingly complex as the number of components increases. Since gene…
A wide range of organisms use circadian clocks to keep internal sense of daily time and regulate their behavior accordingly. Most of these clocks use intracellular genetic networks based on positive and negative regulatory elements. The…
Statistical properties of the critical current distribution in superconductor with fractal clusters of a normal phase are considered. It is found that there is the range of fractal dimensions in which the variance and expectation for this…
We used the Transfer-Integral method to compute, with an uncertainty smaller than 5%, the six fundamental characteristic exponents of two dynamical models for DNA thermal denaturation and investigate the validity of the scaling laws. Doubts…
The concept of Self-Organized Criticality (SOC) was proposed in an attempt to explain the widespread appearance of power-law in nature. It describes a mechanism in which a system reaches spontaneously a state where the characteristic events…
This is a review of a set of recent papers with some new data added. After a brief biological introduction a visualization scheme of the string composition of long DNA sequences, in particular, of bacterial complete genomes, will be…
The role of inhomegeneity in determining the properties of correlated electron systems is poorly understood because of the dearth of structural probes of disorder at the nanoscale. Advances in both neutron and x-ray scattering…
Living systems are hierarchical control systems that display a small world network structure, in which many smaller clusters are nested within fewer larger ones, producing a fractal-like structure with a power-law cluster size distribution…
We present a non-perturbative analysis of the power-spectrum of energy level fluctuations in fully chaotic quantum structures. Focussing on systems with broken time-reversal symmetry, we employ a finite-$N$ random matrix theory to derive an…
Introducing a general class of one-dimensional single-file systems (meaning that particle crossings are prohibited) of interacting hardcore particles with internal degrees of freedom (called charge), we exhibit a novel type of dynamical…
We show a dissipative phase transition in a driven nonlinear quantum oscillator in which a discrete time-translation symmetry is spontaneously broken in two different ways. The corresponding regimes display either discrete or incommensurate…
We theoretically and numerically demonstrate that completely integrable scattering processes may exhibit fractal transmission fluctuations, due to typical spectral properties of integrable systems. Similar properties also occur with…
The thermodynamic properties of DNA circular molecules are investigated by a new path integral computational method which treats in the real space the fundamental forces stabilizing the molecule. The base pair and stacking contributions to…
The equilibrium structure of a Dinucleosome is studied using an elastic model that takes into account the force and torque balance conditions. Using the proper boundary conditions, it is found that the conformational energy of the problem…
Strong violations of existing fluctuation theorems may arise in nonequilibrium steady states characterized by distributions with power-law tails. The ratio of the probabilities of positive and negative fluctuations of equal magnitude…
While bacterial chromosomes were long thought to be amorphous, recent experiments reveal pronounced organizational features. However, the extent of bacterial chromosome organization remains unclear. Here, we develop a fully data-driven…